flowClust 1.0.0
Raphael Gottardo
| Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust | | Last Changed Rev: 30947 / Revision: 30951 | | Last Changed Date: 2008-04-08 22:34:40 -0700 (Tue, 08 Apr 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | WARNINGS | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | WARNINGS | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | [ ERROR ] | skipped | skipped |
| pelham | Mac OS X Leopard (10.5.1) / i386 | OK | WARNINGS | OK |
* checking for file 'flowClust/DESCRIPTION' ... OK
* preparing 'flowClust':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to re-build vignettes
installing R.css in E:/biocbld/bbs-2.2-bioc/tmpdir/Rinst400412945
---------- Making package flowClust ------------
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
making DLL ...
making BoxCox.d from BoxCox.c
making flowClust.d from flowClust.c
making ranMVNT.d from ranMVNT.c
gcc -std=gnu99 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c BoxCox.c -o BoxCox.o
In file included from BoxCox.c:1:
flowClust.h:1:26: error: gsl/gsl_math.h: No such file or directory
flowClust.h:2:28: error: gsl/gsl_matrix.h: No such file or directory
flowClust.h:3:28: error: gsl/gsl_vector.h: No such file or directory
flowClust.h:4:25: error: gsl/gsl_rng.h: No such file or directory
flowClust.h:5:29: error: gsl/gsl_randist.h: No such file or directory
flowClust.h:6:27: error: gsl/gsl_cblas.h: No such file or directory
flowClust.h:7:28: error: gsl/gsl_sf_log.h: No such file or directory
flowClust.h:8:28: error: gsl/gsl_sf_exp.h: No such file or directory
flowClust.h:9:28: error: gsl/gsl_linalg.h: No such file or directory
flowClust.h:10:30: error: gsl/gsl_sf_gamma.h: No such file or directory
flowClust.h:11:32: error: gsl/gsl_statistics.h: No such file or directory
flowClust.h:12:26: error: gsl/gsl_blas.h: No such file or directory
flowClust.h:13:27: error: gsl/gsl_roots.h: No such file or directory
flowClust.h:14:27: error: gsl/gsl_errno.h: No such file or directory
flowClust.h:15:25: error: gsl/gsl_min.h: No such file or directory
In file included from BoxCox.c:1:
flowClust.h:19: error: expected specifier-qualifier-list before 'gsl_matrix'
flowClust.h:28: error: expected ')' before '*' token
flowClust.h:29: error: expected ')' before '*' token
flowClust.h:30: error: expected ')' before '*' token
flowClust.h:31: error: expected ')' before '*' token
flowClust.h:32: error: expected ')' before '*' token
flowClust.h:34: error: expected ')' before '*' token
flowClust.h:35: error: expected ')' before '*' token
flowClust.h:36: error: expected ')' before '*' token
flowClust.h:37: error: expected ')' before '*' token
flowClust.h:38: error: expected ')' before '*' token
BoxCox.c: In function 'BoxCoxGradient':
BoxCox.c:6: error: 'gsl_matrix' undeclared (first use in this function)
BoxCox.c:6: error: (Each undeclared identifier is reported only once
BoxCox.c:6: error: for each function it appears in.)
BoxCox.c:6: error: 'Mu' undeclared (first use in this function)
BoxCox.c:6: error: 'struct BoxCox_params' has no member named 'Mu'
BoxCox.c:7: error: 'Precision' undeclared (first use in this function)
BoxCox.c:7: error: 'struct BoxCox_params' has no member named 'Precision'
BoxCox.c:8: error: 'gsl_vector' undeclared (first use in this function)
BoxCox.c:8: error: 'W' undeclared (first use in this function)
BoxCox.c:8: error: 'struct BoxCox_params' has no member named 'W'
BoxCox.c:9: error: 'Weight' undeclared (first use in this function)
BoxCox.c:9: error: 'struct BoxCox_params' has no member named 'Weight'
BoxCox.c:10: error: 'Z' undeclared (first use in this function)
BoxCox.c:10: error: 'struct BoxCox_params' has no member named 'Z'
BoxCox.c:11: error: 'Y' undeclared (first use in this function)
BoxCox.c:11: error: 'struct BoxCox_params' has no member named 'Y'
BoxCox.c:12: error: 'WeightedY' undeclared (first use in this function)
BoxCox.c:12: error: 'struct BoxCox_params' has no member named 'WeightedY'
BoxCox.c:13: error: 'DiagOne' undeclared (first use in this function)
BoxCox.c:13: error: 'struct BoxCox_params' has no member named 'DiagOne'
BoxCox.c:14: error: 'SumWZ' undeclared (first use in this function)
BoxCox.c:14: error: 'struct BoxCox_params' has no member named 'SumWZ'
BoxCox.c:15: error: 'SumZ' undeclared (first use in this function)
BoxCox.c:15: error: 'struct BoxCox_params' has no member named 'SumZ'
BoxCox.c:22: error: 'gsl_vector_view' undeclared (first use in this function)
BoxCox.c:22: error: expected ';' before 'Ylong'
BoxCox.c:23: error: 'gsl_matrix_view' undeclared (first use in this function)
BoxCox.c:23: error: expected ';' before 'YY'
BoxCox.c:25: error: 'SMu' undeclared (first use in this function)
BoxCox.c:25: warning: implicit declaration of function 'gsl_vector_alloc'
BoxCox.c:25: error: 'YTmp' undeclared (first use in this function)
BoxCox.c:25: warning: left-hand operand of comma expression has no effect
BoxCox.c:26: error: 'Yo' undeclared (first use in this function)
BoxCox.c:26: warning: implicit declaration of function 'gsl_matrix_alloc'
BoxCox.c:27: error: 'WeightedY1' undeclared (first use in this function)
BoxCox.c:35: warning: implicit declaration of function 'gsl_matrix_get'
BoxCox.c:36: warning: implicit declaration of function 'gsl_matrix_set'
BoxCox.c:36: warning: implicit declaration of function 'pow'
BoxCox.c:36: warning: incompatible implicit declaration of built-in function 'pow'
BoxCox.c:36: warning: implicit declaration of function 'fabs'
BoxCox.c:36: warning: incompatible implicit declaration of built-in function 'fabs'
BoxCox.c:40: warning: implicit declaration of function 'log'
BoxCox.c:40: warning: incompatible implicit declaration of built-in function 'log'
BoxCox.c:42: warning: incompatible implicit declaration of built-in function 'log'
BoxCox.c:47: warning: implicit declaration of function 'gsl_blas_dgemm'
BoxCox.c:47: error: 'CblasTrans' undeclared (first use in this function)
BoxCox.c:47: error: 'CblasNoTrans' undeclared (first use in this function)
BoxCox.c:51: error: 'col' undeclared (first use in this function)
BoxCox.c:51: warning: implicit declaration of function 'gsl_matrix_column'
BoxCox.c:52: error: 'row' undeclared (first use in this function)
BoxCox.c:52: warning: implicit declaration of function 'gsl_matrix_row'
BoxCox.c:53: error: 'Prow' undeclared (first use in this function)
BoxCox.c:53: warning: implicit declaration of function 'gsl_matrix_view_vector'
BoxCox.c:55: warning: implicit declaration of function 'gsl_blas_dscal'
BoxCox.c:55: warning: implicit declaration of function 'gsl_vector_get'
BoxCox.c:56: error: 'YY' undeclared (first use in this function)
BoxCox.c:56: warning: implicit declaration of function 'gsl_matrix_submatrix'
BoxCox.c:57: error: 'YY1' undeclared (first use in this function)
BoxCox.c:63: warning: implicit declaration of function 'up_date_precision'
BoxCox.c:64: warning: implicit declaration of function 'gsl_vector_set'
BoxCox.c:66: warning: implicit declaration of function 'gsl_blas_dtrmm'
BoxCox.c:66: error: 'CblasRight' undeclared (first use in this function)
BoxCox.c:66: error: 'CblasLower' undeclared (first use in this function)
BoxCox.c:66: error: 'CblasNonUnit' undeclared (first use in this function)
BoxCox.c:71: error: 'Ylong' undeclared (first use in this function)
BoxCox.c:71: warning: implicit declaration of function 'gsl_vector_view_array'
BoxCox.c:72: error: 'Y1long' undeclared (first use in this function)
BoxCox.c:73: warning: implicit declaration of function 'gsl_blas_ddot'
BoxCox.c:77: warning: implicit declaration of function 'gsl_vector_memcpy'
BoxCox.c:78: warning: implicit declaration of function 'gsl_blas_dtrmv'
BoxCox.c:78: error: 'CblasUpper' undeclared (first use in this function)
BoxCox.c:79: warning: implicit declaration of function 'gsl_blas_dgemv'
BoxCox.c:85: warning: implicit declaration of function 'gsl_vector_free'
BoxCox.c:87: warning: implicit declaration of function 'gsl_matrix_free'
make[3]: *** [BoxCox.o] Error 1
make[2]: *** [srcDynlib] Error 2
make[1]: *** [all] Error 2
make: *** [pkg-flowClust] Error 2
*** Installation of flowClust failed ***
Removing 'E:/biocbld/bbs-2.2-bioc/tmpdir/Rinst400412945/flowClust'
* creating vignettes ... ERROR
Error: processing vignette 'flowClust.Rnw' failed with diagnostics:
chunk 1 (label=stage0)
Error in library(flowClust) : there is no package called 'flowClust'
Execution halted